Rorug02G0351500

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000002
OG0000591
Physical Location & Seq
Reverse (-)
44184287 .. 44187939
3653 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug02G0351500.1

Sequence Viewer

Length: 717 bp
ATGTCAGGCCCTCAGTGCTGTTCTAACCCACCAATTATCAAGACAAGCTGTGGTTCAGACTCTGCTGAAAAATTTGGAGGCCTTACTGTCTATGTCACAGGATCTCCTAACTCCAAGCGTGCTATTCTTCTTATCTCTGATGTTTTTGGATATGGAGCTCCCAACTTGAGGAAGCTTGCAGGAAGAGTTGCCACTTCTGGATTCTATGTTGTAGTTCCAGACTTCTTCTATGGAGATGCGTTTGTGTATGACAATAACAGGCCTCTAGCAGTCTGGTTAAAAGATCATGGAACGGATAAGGGATTTGAAGATGCAAAATCAGTGATTGACGCTCTTATACGTCAAGGTTTTTCTGCAATTGGAGCTGCAGGCTTCTGTTGGGGTGGCAAGGTCGTGACCGAACTTGCAAAGTCTGAGTTCATCCAAGCTGCTGTGCTGTTGCATCCTTCATTTATATCTGTGGATGATATTGAGGGGGTTAAATCTCCAATTGCCGTACTAGGAGCTGAGATTGACAACTACTCTCCACCAGAACTCGTGAAAGAGTTTGAGGAGATATTAAATGCTAAACCCGAGGTTGATAGCTATGTGAAGATATTTCCAAAAGTTGCACATGGTTGGGCTGTGAGGTATGATGTTGATGATGAAGCAGCTGCAAAGAGTGCAGAGGAAGCTCATAATGACATGTTGCAGTGGTTTGCTAAGCATGTAAAGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PPR PPR_2 PfkB TB2_DP1_HVA22

Protein Analysis

238

Amino Acids

25.78

Weight (kDa)

5.14

Isoelectric Point (pI)

37.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DLH PF01738 30 - 236 1.6e-30 Dienelactone hydrolase family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000591)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G03566
fragaria_vesca FvH4_2g12622 FvH4_2g12642 FvH4_2g13902 FvH4_3g05011 FvH4_3g18961 FvH4_3g31940 FvH4_4g08421 FvH4_4g21351 FvH4_5g28071 FvH4_5g34871 FvH4_6g21812 FvH4_6g30441 FvH4_6g33631
rosa_chinensis RchiOBHm_Chr1g0320221 RchiOBHm_Chr1g0356521 RchiOBHm_Chr4g0389021 RchiOBHm_Chr5g0020651 RchiOBHm_Chr5g0027511
rosa_laevigata RLG00000002966 RLG00000019504
rosa_multiflora Rmu_co7963640.1_g000001 Rmu_co7988458.1_g000001 Rmu_co8109512.1_g000001 Rmu_co8136160.1_g000001 Rmu_co8253655.1_g000001 Rmu_sc0000388.1_g000040 Rmu_sc0000540.1_g000056 Rmu_sc0000574.1_g000013 Rmu_sc0000623.1_g000001 Rmu_sc0000795.1_g000005 Rmu_sc0000795.1_g000006 Rmu_sc0001063.1_g000001 Rmu_sc0002116.1_g000001 Rmu_sc0002192.1_g000012 Rmu_sc0002640.1_g000015 Rmu_sc0003337.1_g000039 Rmu_sc0004298.1_g000003 Rmu_sc0004771.1_g000001 Rmu_sc0006119.1_g000010 Rmu_sc0006633.1_g000007 Rmu_sc0007025.1_g000016 Rmu_sc0007221.1_g000002 Rmu_sc0007222.1_g000002 Rmu_sc0007806.1_g000016 Rmu_sc0008241.1_g000018 Rmu_sc0008348.1_g000001 Rmu_sc0009034.1_g000001 Rmu_sc0009955.1_g000004 Rmu_sc0018325.1_g000009 Rmu_sc0028328.1_g000002 Rmu_sc0030178.1_g000001 Rmu_sc0034381.1_g000001 Rmu_sc0041085.1_g000001 Rmu_sc0041085.1_g000002
rosa_roxburghii Rroxscaffold_3G00233230 Rroxscaffold_7G00193120 Rroxscaffold_7G00194820
rosa_rugosa Rorug01G0017000 Rorug01G0036400 Rorug01G0062600 Rorug01G0118500 Rorug02G0351500 Rorug02G0497600 Rorug03G0233200 Rorug03G0279500 Rorug03G0347600 Rorug04G0077100 Rorug04G0077200 Rorug04G0210900 Rorug05G0206900 Rorug07G0202900 Rorug07G0334000
rosa_samantha Rh2CG195700 Rh4DG035800
rosa_wichuraiana Rw0G005080 Rw0G013600 Rw2G020080 Rw2G024380 Rw5G002230 Rw5G036790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 109
AcsI RAATTY 1 cut(s) 71
AfaI GTAC 1 cut(s) 498
AfiI CCNNNNNNNGG 1 cut(s) 168
AflIII ACRYGT 1 cut(s) 684
AgsI TTSAA 1 cut(s) 308
AluBI AGCT 9 cut(s) 48, 158, 175, 365, 428, 506, 585, 653, 674
AluI AGCT 9 cut(s) 48, 158, 175, 365, 428, 506, 585, 653, 674
Alw21I GWGCWC 1 cut(s) 160
AlwI GGATC 1 cut(s) 109
AlwNI CAGNNNCTG 1 cut(s) 62
Ama87I CYCGRG 1 cut(s) 572
AoxI GGCC 3 cut(s) 7, 79, 260
ApeKI GCWGC 4 cut(s) 365, 428, 650, 653
ApoI RAATTY 1 cut(s) 71
AspS9I GGNCC 1 cut(s) 8
AvaI CYCGRG 1 cut(s) 572
BanII GRGCYC 1 cut(s) 160
BauI CACGAG 1 cut(s) 536
Bbv12I GWGCWC 1 cut(s) 160
BbvI GCAGC 4 cut(s) 352, 415, 640, 662
BceAI ACGGC 1 cut(s) 479
BfaI CTAG 2 cut(s) 266, 500
BfmI CTRYAG 1 cut(s) 366
BisI GCNGC 4 cut(s) 366, 429, 651, 654
BlpI GCTNAGC 1 cut(s) 702
BlsI GCNGC 4 cut(s) 367, 430, 652, 655
BmeT110I CYCGRG 1 cut(s) 572
BmgT120I GGNCC 1 cut(s) 8
BmsI GCATC 3 cut(s) 226, 301, 451
Bpu1102I GCTNAGC 1 cut(s) 702
BpuEI CTTGAG 1 cut(s) 187
BsaJI CCNNGG 1 cut(s) 573
BsaXI ACNNNNNCTCC 2 cut(s) 88, 118
Bsc4I CCNNNNNNNGG 1 cut(s) 168
BseDI CCNNGG 1 cut(s) 573
BseGI GGATG 3 cut(s) 420, 442, 469
BseLI CCNNNNNNNGG 1 cut(s) 168
BseMII CTCAG 3 cut(s) 26, 405, 498
BseRI GAGGAG 1 cut(s) 566
BseXI GCAGC 4 cut(s) 352, 415, 640, 662
BsgI GTGCAG 1 cut(s) 684
BshFI GGCC 3 cut(s) 9, 81, 262
BsiHKAI GWGCWC 1 cut(s) 160
BsiHKCI CYCGRG 1 cut(s) 572
BslI CCNNNNNNNGG 1 cut(s) 168
BsnI GGCC 3 cut(s) 9, 81, 262
BsoBI CYCGRG 1 cut(s) 572
Bsp1286I GDGCHC 1 cut(s) 160
Bsp143I GATC 2 cut(s) 101, 283
Bsp1720I GCTNAGC 1 cut(s) 702
BspANI GGCC 3 cut(s) 9, 81, 262
BspCNI CTCAG 3 cut(s) 25, 406, 499
BspMAI CTGCAG 1 cut(s) 370
BspPI GGATC 1 cut(s) 109
BssECI CCNNGG 1 cut(s) 573
BssMI GATC 2 cut(s) 101, 283
BssSI CACGAG 1 cut(s) 536
Bst2BI CACGAG 1 cut(s) 536
Bst4CI ACNGT 1 cut(s) 88
Bst6I CTCTTC 1 cut(s) 178
BstAPI GCANNNNNTGC 1 cut(s) 662
BstC8I GCNNGC 3 cut(s) 120, 177, 370
BstDEI CTNAG 4 cut(s) 12, 414, 507, 702
BstF5I GGATG 3 cut(s) 420, 442, 469
BstKTI GATC 2 cut(s) 104, 286
BstMBI GATC 2 cut(s) 101, 283
BstMWI GCNNNNNNNGC 4 cut(s) 15, 362, 662, 671
BstNSI RCATGY 2 cut(s) 688, 710
BstSFI CTRYAG 1 cut(s) 366
BstV1I GCAGC 4 cut(s) 352, 415, 640, 662
BstX2I RGATCY 1 cut(s) 101
BstYI RGATCY 1 cut(s) 101
BsuRI GGCC 3 cut(s) 9, 81, 262
BtsCI GGATG 3 cut(s) 420, 442, 469
BtsI GCAGTG 1 cut(s) 698
BtsIMutI CAGTG 3 cut(s) 20, 327, 698
Cac8I GCNNGC 3 cut(s) 120, 177, 370
CaiI CAGNNNCTG 1 cut(s) 62
Cfr13I GGNCC 1 cut(s) 8
CseI GACGC 1 cut(s) 338
Csp6I GTAC 1 cut(s) 497
CviAII CATG 4 cut(s) 287, 614, 685, 707
CviQI GTAC 1 cut(s) 497
DdeI CTNAG 4 cut(s) 12, 414, 507, 702
DpnI GATC 2 cut(s) 103, 285
DpnII GATC 2 cut(s) 101, 283
Eam1104I CTCTTC 1 cut(s) 178
EarI CTCTTC 1 cut(s) 178
Ecl136II GAGCTC 1 cut(s) 158
Eco147I AGGCCT 2 cut(s) 81, 262
Eco24I GRGCYC 1 cut(s) 160
Eco53kI GAGCTC 1 cut(s) 158
Eco88I CYCGRG 1 cut(s) 572
EcoICRI GAGCTC 1 cut(s) 158
EcoO109I RGGNCCY 1 cut(s) 8
EcoT38I GRGCYC 1 cut(s) 160
FaeI CATG 4 cut(s) 290, 617, 688, 710
FatI CATG 4 cut(s) 286, 613, 684, 706
Fnu4HI GCNGC 4 cut(s) 366, 429, 651, 654
FokI GGATG 3 cut(s) 407, 429, 476
FriOI GRGCYC 1 cut(s) 160
Fsp4HI GCNGC 4 cut(s) 366, 429, 651, 654
FspBI CTAG 2 cut(s) 266, 500
GluI GCNGC 4 cut(s) 366, 429, 651, 654
HaeIII GGCC 3 cut(s) 9, 81, 262
HgaI GACGC 1 cut(s) 338
Hin1II CATG 4 cut(s) 290, 617, 688, 710
HindIII AAGCTT 1 cut(s) 173
HinfI GANTC 2 cut(s) 59, 201
Hpy188I TCNGA 3 cut(s) 58, 139, 415
Hpy188III TCNNGA 5 cut(s) 40, 198, 218, 394, 538
HpyAV CCTTC 1 cut(s) 456
HpyCH4III ACNGT 1 cut(s) 88
HpyCH4IV ACGT 1 cut(s) 340
HpyF10VI GCNNNNNNNGC 4 cut(s) 15, 362, 662, 671
HpyF3I CTNAG 4 cut(s) 12, 414, 507, 702
HpySE526I ACGT 1 cut(s) 340
Hsp92II CATG 4 cut(s) 290, 617, 688, 710
Kzo9I GATC 2 cut(s) 101, 283
LmnI GCTCC 4 cut(s) 155, 163, 362, 503
LpnPI CCDG 8 cut(s) 84, 165, 183, 231, 244, 259, 354, 543
Lsp1109I GCAGC 4 cut(s) 352, 415, 640, 662
LweI GCATC 3 cut(s) 226, 301, 451
MaeI CTAG 2 cut(s) 266, 500
MaeII ACGT 1 cut(s) 340
MaeIII GTNAC 2 cut(s) 94, 394
MalI GATC 2 cut(s) 103, 285
MboI GATC 2 cut(s) 101, 283
MboII GAAGA 5 cut(s) 119, 195, 217, 320, 604
MfeI CAATTG 2 cut(s) 357, 489
MflI RGATCY 1 cut(s) 101
MhlI GDGCHC 1 cut(s) 160
MluCI AATT 4 cut(s) 33, 71, 357, 489
MlyI GAGTC 1 cut(s) 53
MnlI CCTC 9 cut(s) 21, 71, 162, 273, 466, 544, 568, 621, 661
MseI TTAA 3 cut(s) 278, 480, 560
MspA1I CMGCKG 1 cut(s) 653
MunI CAATTG 2 cut(s) 357, 489
MwoI GCNNNNNNNGC 4 cut(s) 15, 362, 662, 671
NdeII GATC 2 cut(s) 101, 283
NlaIII CATG 4 cut(s) 290, 617, 688, 710
NmuCI GTSAC 2 cut(s) 94, 394
NspI RCATGY 2 cut(s) 688, 710
PceI AGGCCT 2 cut(s) 81, 262
PciI ACATGT 1 cut(s) 684
PfeI GAWTC 1 cut(s) 201
PkrI GCNGC 4 cut(s) 367, 430, 652, 655
PleI GAGTC 1 cut(s) 53
PpsI GAGTC 1 cut(s) 53
PscI ACATGT 1 cut(s) 684
Psp124BI GAGCTC 1 cut(s) 160
PspPI GGNCC 1 cut(s) 8
PstI CTGCAG 1 cut(s) 370
PstNI CAGNNNCTG 1 cut(s) 62
PsuI RGATCY 1 cut(s) 101
PvuII CAGCTG 1 cut(s) 653
RsaI GTAC 1 cut(s) 498
RsaNI GTAC 1 cut(s) 497
SacI GAGCTC 1 cut(s) 160
SaqAI TTAA 3 cut(s) 278, 480, 560
SatI GCNGC 4 cut(s) 366, 429, 651, 654
Sau3AI GATC 2 cut(s) 101, 283
Sau96I GGNCC 1 cut(s) 8
SchI GAGTC 1 cut(s) 53
SduI GDGCHC 1 cut(s) 160
SfaNI GCATC 3 cut(s) 226, 301, 451
SfcI CTRYAG 1 cut(s) 366
SmlI CTYRAG 1 cut(s) 166
SmoI CTYRAG 1 cut(s) 166
Sse9I AATT 4 cut(s) 33, 71, 357, 489
SseBI AGGCCT 2 cut(s) 81, 262
SspMI CTAG 2 cut(s) 266, 500
SstI GAGCTC 1 cut(s) 160
StuI AGGCCT 2 cut(s) 81, 262
TaaI ACNGT 1 cut(s) 88
TaiI ACGT 1 cut(s) 343
TaqII GACCGA 1 cut(s) 413
TasI AATT 4 cut(s) 33, 71, 357, 489
TfiI GAWTC 1 cut(s) 201
Tru1I TTAA 3 cut(s) 278, 480, 560
Tru9I TTAA 3 cut(s) 278, 480, 560
TscAI CASTG 3 cut(s) 20, 327, 698
TseFI GTSAC 2 cut(s) 94, 394
TseI GCWGC 4 cut(s) 365, 428, 650, 653
Tsp45I GTSAC 2 cut(s) 94, 394
TspDTI ATGAA 3 cut(s) 409, 438, 660
TspGWI ACGGA 1 cut(s) 308
TspRI CASTG 3 cut(s) 20, 327, 698
XapI RAATTY 1 cut(s) 71
XceI RCATGY 2 cut(s) 688, 710
XspI CTAG 2 cut(s) 266, 500
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.